Comprehensive analysis of transcriptome-wide m<sup>6</sup>A methylome in the anterior capsule of the lens of high myopia patients

Wen, Ke; Zhang, Yan; Li, Yahong; Wang, Qing; Sun, Jing

doi:10.1080/15592294.2020.1834917

Cited by 21 publications

(16 citation statements)

References 57 publications

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“…The generated data in the present study displayed that a diverse pattern of mRNA methylation have occurred over the testis development. These mRNA m6A sites were mainly concentrated around the CDS and 3′UTRs region (95.28%), in agreement with the distributional characteristics of the mammalian transcriptomes ( Wen et al, 2020 ). Our data showed that although the m6A peaks for each group markedly varied on different chromosomes, they had a highest expressed distribution in chromosome 19 within groups.…”

Section: Discussionsupporting

confidence: 80%

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Transcriptome-Wide m6A Analysis Provides Novel Insights Into Testicular Development and Spermatogenesis in Xia-Nan Cattle

Liu

Yue³

et al. 2021

Front. Cell Dev. Biol.

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Testis is the primary organ of the male reproductive tract in mammals that plays a substantial role in spermatogenesis. Improvement of our knowledge regarding the molecular mechanisms in testicular development and spermatogenesis will be reflected in producing spermatozoa of superior fertility. Evidence showed that N6-Methyladenosine (m6A) plays a dynamic role in post-transcription gene expression regulation and is strongly associated with production traits. However, the role of m6A in bovine testis has not been investigated yet. In this study, we conducted MeRIP-Seq analysis to explore the expression profiles of the m6A and its potential mechanism underlying spermatogenesis in nine bovine testes at three developmental stages (prepuberty, puberty and postpuberty). The experimental animals with triplicate in each stage were chosen based on their semen volume and sperm motility except for the prepuberty bulls and used for testes collection. By applying MeRIP-Seq analysis, a total of 8,774 m6A peaks and 6,206 m6A genes among the studied groups were identified. All the detected peaks were found to be mainly enriched in the coding region and 3′- untranslated regions. The cross-analysis of m6A and mRNA expression exhibited 502 genes with concomitant changes in the mRNA expression and m6A modification. Notably, 30 candidate genes were located in the largest network of protein-protein interactions. Interestingly, four key node genes (PLK4, PTEN, EGR1, and PSME4) were associated with the regulation of mammal testis development and spermatogenesis. This study is the first to present a map of RNA m6A modification in bovine testes at distinct ages, and provides new insights into m6A topology and related molecular mechanisms underlying bovine spermatogenesis, and establishes a basis for further studies on spermatogenesis in mammals.

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Section: Discussionsupporting

confidence: 80%

“…In the study, a total of 2,278 unique DMGs were identified among all the pairwise groups. Differential m6A methylation has proved to be responsible for tissue or organ differentiation and development ( Wen et al, 2020 ). Regarding the function and pathway of DMGs, we performed GO and KEGG enrichment analysis for DMGs.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome-Wide m6A Analysis Provides Novel Insights Into Testicular Development and Spermatogenesis in Xia-Nan Cattle

Liu

Yue³

et al. 2021

Front. Cell Dev. Biol.

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“…In this study, we found the m 6 A modification level of BMP4 and KCNN2 were consistent with their gene expression. This suggests that changes in the level of m 6 A modification of genes are likely to affect gene expression [38]. At present, many studies have confirmed that YT521-B homology (YTH) and insulin-like growth factor 2 mRNA-binding protein (IGF2BP) domain play a role in mRNA stabilization, translation and degradation by recognizing methylated m 6 A sites on genes [39][40][41].…”

Section: Discussionmentioning

confidence: 99%

Comprehensive analysis of RNA m6A methylation in pressure overload-induced cardiac hypertrophy

Xing

Bao

et al. 2022

BMC Genomics

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Aim To analyze and compare the mRNA N6-methyladenosine modifications in transverse aortic constriction induced mice hearts and normal mice hearts. Materials and methods Colorimetric quantification was used to probe the changes in m6A modifications in the total RNA. The expression of m6A-related enzymes was analyzed via qRT-PCR and western blotting. RNA-seq and MeRIP-seq were performed to identify genes with differences in m6A modifications or expression in the transcriptome profile. Results Compared with the control group, the TAC group exhibited higher m6A methylation levels. FTO and WTAP were downregulated after TAC, while METTL3 was significantly downregulated at the protein level. MeRIP-seq revealed that 1179 m6A peaks were upmethylated and 733 m6A peaks were downmethylated, and biological analysis of these genes exhibited a strong relationship with heart function. Conclusion Our findings provide novel information regarding m6A modification and gene expression changes in cardiac hypertrophy, which may be fundamental for further research.

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“…Using MeRIP‐seq and RNA‐seq, one recent study comprehensively analyzed the transcriptome‐wide m6A methylome and gene expressions of the anterior capsule of the lens in highly myopic patients with nuclear cataract anterior. They found that METTL14 was upregulated whereas METTL3, FTO, ALKBH5, YTHDF1, and YTHDF2 were downregulated, which suggests that m6A methylation was strongly associated with the pathogenic mechanism of high myopia (Wen et al, 2021). Overall, these studies have uncovered the regulatory roles of m6A modifications in aging‐related cataracts.…”

Section: Rna Modifications In Aging‐related Cataractsmentioning

confidence: 99%

Regulation and roles of RNA modifications in aging‐related diseases

Jiapaer

Hua

et al. 2022

Aging Cell

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With the aging of the global population, accumulating interest is focused on manipulating the fundamental aging-related signaling pathways to delay the physiological aging process and eventually slow or prevent the appearance or severity of multiple aging-related diseases. Recently, emerging evidence has shown that RNA modifications, which were historically considered infrastructural features of cellular RNAs, are dynamically regulated across most of the RNA species in cells and thereby critically involved in major biological processes, including cellular senescence and aging. In this review, we summarize the current knowledge about RNA modifications and provide a catalog of RNA modifications on different RNA species, including mRNAs, miRNAs, lncRNA, tRNAs, and rRNAs. Most importantly, we focus on the regulation and roles of these RNA modifications in aging-related diseases, including neurodegenerative diseases, cardiovascular diseases, cataracts, osteoporosis, and fertility decline. This would be an important step toward a better understanding of fundamental aging mechanisms and thereby facilitating the development of novel diagnostics and therapeutics for aging-related diseases.

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Comprehensive analysis of transcriptome-wide m⁶A methylome in the anterior capsule of the lens of high myopia patients

Cited by 21 publications

References 57 publications

Transcriptome-Wide m6A Analysis Provides Novel Insights Into Testicular Development and Spermatogenesis in Xia-Nan Cattle

Transcriptome-Wide m6A Analysis Provides Novel Insights Into Testicular Development and Spermatogenesis in Xia-Nan Cattle

Comprehensive analysis of RNA m6A methylation in pressure overload-induced cardiac hypertrophy

Regulation and roles of RNA modifications in aging‐related diseases

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Comprehensive analysis of transcriptome-wide m6A methylome in the anterior capsule of the lens of high myopia patients

Cited by 21 publications

References 57 publications

Transcriptome-Wide m6A Analysis Provides Novel Insights Into Testicular Development and Spermatogenesis in Xia-Nan Cattle

Transcriptome-Wide m6A Analysis Provides Novel Insights Into Testicular Development and Spermatogenesis in Xia-Nan Cattle

Comprehensive analysis of RNA m6A methylation in pressure overload-induced cardiac hypertrophy

Regulation and roles of RNA modifications in aging‐related diseases

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Comprehensive analysis of transcriptome-wide m⁶A methylome in the anterior capsule of the lens of high myopia patients